Sampling and scoring: A marriage made in heaven

Application of asymmetric statistical potentials to antibody-protein docking

(2012) R. Brenke et al.   BIOINFORMATICS

Energy design for protein-protein interactions

(2011) D. V. S. Ravikant et al.   JOURNAL OF CHEMICAL PHYSICS

SKATE: A docking program that decouples systematic sampling from scoring

(2010) Jianwen A. Feng et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

A large decoy set of protein-protein complexes produced by flexible docking

(2010) Guillaume Launay et al.   JOURNAL OF COMPUTATIONAL CHEMISTRY

dockYard–a repository to assist modeling of protein-protein docking

(2010) Pralay Mitra et al.   JOURNAL OF MOLECULAR MODELING

A Novel Side-Chain Orientation Dependent Potential Derived from Random-Walk Reference State for Protein Fold Selection and Structure Prediction

(2010) Jian Zhang et al.   PLoS One

Docking and scoring protein interactions: CAPRI 2009

(2010) Marc F. Lensink et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein-protein docking benchmark version 4.0

(2010) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Convergence and combination of methods in protein–protein docking

(2009) Sandor Vajda et al.   CURRENT OPINION IN STRUCTURAL BIOLOGY

PIE—Efficient filters and coarse grained potentials for unbound protein–protein docking

(2009) D. V. S. Ravikant et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

DOCKGROUND protein-protein docking decoy set

(2008) S. Liu et al.   BIOINFORMATICS

DARS (Decoys As the Reference State) Potentials for Protein-Protein Docking

(2008) Gwo-Yu Chuang et al.   BIOPHYSICAL JOURNAL

Recent Progress and Future Directions in Protein-Protein Docking

(2008) David Ritchie   CURRENT PROTEIN & PEPTIDE SCIENCE

Discrimination of near-native structures in protein-protein docking by testing the stability of local minima

(2008) Dima Kozakov et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

An iterative knowledge-based scoring function for protein-protein recognition

(2008) Sheng-You Huang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Principles of flexible protein-protein docking

(2008) Nelly Andrusier et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Protein-protein docking benchmark version 3.0

(2008) Howook Hwang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS

Consensus scoring for enriching near-native structures from protein-protein docking decoys

(2008) Shide Liang et al.   PROTEINS-STRUCTURE FUNCTION AND BIOINFORMATICS